Nicotiana tabacum seed endophytic communities share a common core structure and genotype-specific signatures in diverging cultivars

Chen, Xiaoyulong; Krug, Lisa; Yang, Hong; Li, Haoxi; Yang, Maofa; Berg, Gabriele; Cernava, Tomislav

doi:10.1016/j.csbj.2020.01.004

Cited by 49 publications

(33 citation statements)

References 44 publications

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“…For example, cultivar H and cultivar K, cultivar A and cultivar E, were derived from the same female parent, but their endophytic bacterial communities were significantly different. This is in contrast to cultivars of other plants where endophytic communities were shown to correspond to the genotype ( Abdullaeva et al, 2020 ; Chen et al, 2020 ). Our observation therefore indicated that the analyzed rice cultivars were not the main drivers of the structure of leaf-associated microbial communities.…”

Section: Discussionmentioning

confidence: 71%

Exploration of Intrinsic Microbial Community Modulators in the Rice Endosphere Indicates a Key Role of Distinct Bacterial Taxa Across Different Cultivars

et al. 2021

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Microbial communities associated with the plant phyllosphere and endosphere can have both beneficial as well as detrimental effects on their hosts. There is an ongoing debate to which extend the phyllosphere and endosphere microbiome assembly is controlled by the host plant how pronounced cultivar effects are. We investigated the bacterial and fungal communities from the phyllosphere and endosphere of 10 different rice cultivars grown under identical environmental conditions in the frame of a targeted approach to identify drivers of community assembly. The results indicated that the endophytic bacterial communities were clearly separated into two groups. The α-diversity and microbial network complexity within Group I were significantly lower than in Group II. Moreover, the genera Nocardioides, Microvirga, and Gaiella were significantly more abundant in Group II and only present in the interaction networks of this group. These three genera were significantly correlated with α- and β-diversity of the endophytic bacterial community and thus identified as major drivers of the endosphere community. We have identified keystone taxa that shape endophytic bacterial communities of different rice cultivars. Our overall findings provide new insights into plant-microbe interactions, and may contribute to targeted improvements of rice varieties in the future.

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Section: Discussionmentioning

confidence: 71%

Exploration of Intrinsic Microbial Community Modulators in the Rice Endosphere Indicates a Key Role of Distinct Bacterial Taxa Across Different Cultivars

et al. 2021

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“…Species in this genus were reported to be a common endophyte in Phaseolus vulgaris seeds [84], Ferula sinkiangensis seeds [85] and Arachis hypogaea seeds and sprouts [72], as well as several other crops [86]. Delftia species are seed bacterial endophytes known for their antagonistic activity against several plant pathogens, growthpromotion, and nitrogen-xing properties [87][88][89]. Rahnella is a bacterium present in oak stems and is suggested to play a role in the pathobiome of acute oak decline [90,91].…”

Section: Discussionmentioning

confidence: 99%

Experimental Evidence of Microbial Inheritance in Plants and Transmission Routes from Seed to Phyllosphere and Root

Abdelfattah

Wisniewski

Schena

et al. 2020

Preprint

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Background While the environment is considered the primary origin for establishing the microbiome of newly developing plants, the potential role of seeds as a source of transmitting microorganisms has not received much attention. Here we tested the hypothesis that the plant microbiome is at least partially inherited through vertical transmission. We investigated where microbes reside within a seed, and how microbes are subsequently transmitted from the seed to seedling’s belowground and aboveground plant tissues. To this aim, an experimental culturing device was constructed to grow oak seedlings in a microbe-free environment while keeping the belowground and aboveground tissues separated.Results Amplicon sequencing of fungal ITS2 and bacterial 16S rDNA revealed that the seed microbiome is diverse and non-randomly distributed within an acorn. The large majority (> 95%) of fungi and bacteria present in the acorn were transmitted to the seedling. The microbial composition of the phyllosphere strongly resembled the composition found in the embryo, whereas the roots and pericarp each had a distinct microbial community. Similar relationships were observed for both fungi and bacteria.Conclusion Our findings demonstrate a high level of microbial diversity and spatial partitioning of the fungal and bacterial community within both seed and seedling, indicating inheritance, niche differentiation, and divergent transmission routes for the establishment of root and phyllosphere communities in oak seedlings. The study provides new information on the importance of the maternal environment as a source of the seedling microbiome, with significant implications for our understanding of the continuity of the plant microbiome across generations.

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“…Metabarcoding approaches, in particular, have become standard in studying the structure of plant endophytic bacterial communities (e.g. Gdanetz and Trail, 2017; Donald et al ., 2019; Vergine et al ., 2019; Wemheuer et al ., 2019; Chen et al ., 2020a, 2020b; Deyett and Rolshausen, 2020; Kuźniar et al ., 2020), because they encompass both the cultivable and non‐cultivable fraction of the bacterial diversity. However, these approaches have biases and limitations (Beckers et al ., 2016; Lucaciu et al ., 2019; Zinger et al ., 2019).…”

Section: Methodological Challenges and Limitations To Study Endophytesmentioning

confidence: 99%

The plant endosphere world – bacterial life within plants

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Cambon

Vacher

et al. 2020

Environmental Microbiology

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The plant endosphere is colonized by complex microbial communities and microorganisms, which colonize the plant interior at least part of their lifetime and are termed endophytes. Their functions range from mutualism to pathogenicity. All plant organs and tissues are generally colonized by bacterial endophytes and their diversity and composition depend on the plant, the plant organ and its physiological conditions, the plant growth stage as well as on the environment. Plant-associated microorganisms, and in particular endophytes, have lately received high attention, because of the increasing awareness of the importance of host-associated microbiota for the functioning and performance of their host. Some endophyte functions are known from mostly lab assays, genome prediction and few metagenome analyses; however, we have limited understanding on in planta activities, particularly considering the diversity of micro-environments and the dynamics of conditions. In our review, we present recent findings on endosphere environments, their physiological conditions and endophyte colonization. Furthermore, we discuss microbial functions, the interaction between endophytes and plants as well as methodological limitations of endophyte research. We also provide an outlook on needs of future research to improve our understanding on the role of microbiota colonizing the endosphere on plant traits and ecosystem functioning.

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Nicotiana tabacum seed endophytic communities share a common core structure and genotype-specific signatures in diverging cultivars

Cited by 49 publications

References 44 publications

Exploration of Intrinsic Microbial Community Modulators in the Rice Endosphere Indicates a Key Role of Distinct Bacterial Taxa Across Different Cultivars

Exploration of Intrinsic Microbial Community Modulators in the Rice Endosphere Indicates a Key Role of Distinct Bacterial Taxa Across Different Cultivars

Experimental Evidence of Microbial Inheritance in Plants and Transmission Routes from Seed to Phyllosphere and Root

The plant endosphere world – bacterial life within plants

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